Disclosing Potential Key Genes, Therapeutic Targets and Agents for Non-Small Cell Lung Cancer: Evidence from Integrative Bioinformatics Analysis

Article


Mosharaf, Md. Parvez, Reza, Md. Selim, Gov, Esra, Mahumud, Rashidul Alam and Mollah, Md. Nurul Haque. 2022. "Disclosing Potential Key Genes, Therapeutic Targets and Agents for Non-Small Cell Lung Cancer: Evidence from Integrative Bioinformatics Analysis." Vaccines. 10 (5). https://doi.org/10.3390/vaccines10050771
Article Title

Disclosing Potential Key Genes, Therapeutic Targets and Agents for Non-Small Cell Lung Cancer: Evidence from Integrative Bioinformatics Analysis

ERA Journal ID214428
Article CategoryArticle
AuthorsMosharaf, Md. Parvez, Reza, Md. Selim, Gov, Esra, Mahumud, Rashidul Alam and Mollah, Md. Nurul Haque
Journal TitleVaccines
Journal Citation10 (5)
Article Number771
Number of Pages20
Year2022
PublisherMDPI AG
Place of PublicationSwitzerland
ISSN2076-393X
Digital Object Identifier (DOI)https://doi.org/10.3390/vaccines10050771
Web Address (URL)https://www.mdpi.com/2076-393X/10/5/771
Abstract

Non-small-cell lung cancer (NSCLC) is considered as one of the malignant cancers that causes premature death. The present study aimed to identify a few potential novel genes highlighting their functions, pathways, and regulators for diagnosis, prognosis, and therapies of NSCLC by using the integrated bioinformatics approaches. At first, we picked out 1943 DEGs between NSCLC and control samples by using the statistical LIMMA approach. Then we selected 11 DEGs (CDK1, EGFR, FYN, UBC, MYC, CCNB1, FOS, RHOB, CDC6, CDC20, and CHEK1) as the hub-DEGs (potential key genes) by the protein–protein interaction network analysis of DEGs. The DEGs and hub-DEGs regulatory network analysis commonly revealed four transcription factors (FOXC1, GATA2, YY1, and NFIC) and five miRNAs (miR-335-5p, miR-26b-5p, miR-92a-3p, miR-155-5p, and miR-16-5p) as the key transcriptional and post-transcriptional regulators of DEGs as well as hub-DEGs. We also disclosed the pathogenetic processes of NSCLC by investigating the biological processes, molecular function, cellular components, and KEGG pathways of DEGs. The multivariate survival probability curves based on the expression of hub-DEGs in the SurvExpress web-tool and database showed the significant differences between the low-and high-risk groups, which indicates strong prognostic power of hub-DEGs. Then, we explored top-ranked 5-hub-DEGs-guided repurposable drugs based on the Connectivity Map (CMap) database. Out of the selected drugs, we validated six FDA-approved launched drugs (Dinaciclib, Afatinib, Icotinib, Bosutinib, Dasatinib, and TWS-119) by molecular docking interaction analysis with the respective target proteins for the treatment against NSCLC. The detected therapeutic targets and repurposable drugs require further attention by experimental studies to establish them as potential biomarkers for precision medicine in NSCLC treatment.

Keywordsgene expression profiles; integrated bioinformatics approaches; molecular signatures; non-small cell lung cancer; therapeutic targets and agents
Contains Sensitive ContentDoes not contain sensitive content
Byline AffiliationsUniversity of Rajshahi, Bangladesh
School of Business
Chinese Academy of Sciences, China
Adana Science and Technology University, Turkiye
University of Sydney
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